Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008

Three genomic regions, VP4 capsid, VP1 capsid and 3D RNA polymerase of human enterovirus 71 (EV-71) and coxsackievirus A16 (CV-A16) were sequenced to understand the evolution of these viruses in Malaysia. A total of 42 EV-71 and 36 CV-A16 isolates from 1997-2008 were sequenced. Despite the presence...

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Main Authors: Chan, Y.F., Wee, K.L., Chiam, C.W., Khor, C.S., Chan, S.Y., Amalina, W.M.Z.W.N., Sam, I.C.
Format: Article
Language:English
Published: 2012
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Online Access:http://eprints.um.edu.my/7325/1/Comparative_genetic_analysis_of_VP4%2C_VP1_and_3D_gene_regions_of_Enterovirus_71_and_coxsackievirus_A16_circulating_in_Malaysia_between_1997-2008.pdf
http://eprints.um.edu.my/7325/
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spelling my.um.eprints.73252014-12-19T03:48:16Z http://eprints.um.edu.my/7325/ Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008 Chan, Y.F. Wee, K.L. Chiam, C.W. Khor, C.S. Chan, S.Y. Amalina, W.M.Z.W.N. Sam, I.C. R Medicine Three genomic regions, VP4 capsid, VP1 capsid and 3D RNA polymerase of human enterovirus 71 (EV-71) and coxsackievirus A16 (CV-A16) were sequenced to understand the evolution of these viruses in Malaysia. A total of 42 EV-71 and 36 CV-A16 isolates from 1997-2008 were sequenced. Despite the presence of many EV-71 subgenotypes worldwide, only subgenotypes B3, B4, B5, C1 and C2 were present in Malaysia. Importation of other subgenotypes such as C3, C4/D and C5 from other countries was infrequent. For CV-A16, the earlier subgenotype B1 was replaced by subgenotypes B2a and the recent B2c. Subgenotype B2a was present throughout the study while B2c only emerged in 2005. No genetic signatures could be attributed to viral virulence suggesting that host factors have a major role in determining the outcome of infection. Only three EV-71 B3 isolates showed non-consistent phylogeny in the 3D RNA polymerase region which indicated occurrence of recombination in EV-71. High genetic diversity was observed in the Malaysian EV-71 but Malaysian CV-A16 showed low genetic diversity in the three genomic regions sequenced. EV-71 showed strong purifying selection, but that occurred to a lesser extent in CV-A16. 2012 Article PeerReviewed application/pdf en http://eprints.um.edu.my/7325/1/Comparative_genetic_analysis_of_VP4%2C_VP1_and_3D_gene_regions_of_Enterovirus_71_and_coxsackievirus_A16_circulating_in_Malaysia_between_1997-2008.pdf Chan, Y.F. and Wee, K.L. and Chiam, C.W. and Khor, C.S. and Chan, S.Y. and Amalina, W.M.Z.W.N. and Sam, I.C. (2012) Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008. Tropical Biomedicine, 29 (3). pp. 451-466. ISSN 0127-5720
institution Universiti Malaya
building UM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaya
content_source UM Research Repository
url_provider http://eprints.um.edu.my/
language English
topic R Medicine
spellingShingle R Medicine
Chan, Y.F.
Wee, K.L.
Chiam, C.W.
Khor, C.S.
Chan, S.Y.
Amalina, W.M.Z.W.N.
Sam, I.C.
Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
description Three genomic regions, VP4 capsid, VP1 capsid and 3D RNA polymerase of human enterovirus 71 (EV-71) and coxsackievirus A16 (CV-A16) were sequenced to understand the evolution of these viruses in Malaysia. A total of 42 EV-71 and 36 CV-A16 isolates from 1997-2008 were sequenced. Despite the presence of many EV-71 subgenotypes worldwide, only subgenotypes B3, B4, B5, C1 and C2 were present in Malaysia. Importation of other subgenotypes such as C3, C4/D and C5 from other countries was infrequent. For CV-A16, the earlier subgenotype B1 was replaced by subgenotypes B2a and the recent B2c. Subgenotype B2a was present throughout the study while B2c only emerged in 2005. No genetic signatures could be attributed to viral virulence suggesting that host factors have a major role in determining the outcome of infection. Only three EV-71 B3 isolates showed non-consistent phylogeny in the 3D RNA polymerase region which indicated occurrence of recombination in EV-71. High genetic diversity was observed in the Malaysian EV-71 but Malaysian CV-A16 showed low genetic diversity in the three genomic regions sequenced. EV-71 showed strong purifying selection, but that occurred to a lesser extent in CV-A16.
format Article
author Chan, Y.F.
Wee, K.L.
Chiam, C.W.
Khor, C.S.
Chan, S.Y.
Amalina, W.M.Z.W.N.
Sam, I.C.
author_facet Chan, Y.F.
Wee, K.L.
Chiam, C.W.
Khor, C.S.
Chan, S.Y.
Amalina, W.M.Z.W.N.
Sam, I.C.
author_sort Chan, Y.F.
title Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
title_short Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
title_full Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
title_fullStr Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
title_full_unstemmed Comparative genetic analysis of VP4, VP1 and 3D gene regions of Enterovirus 71 and coxsackievirus A16 circulating in Malaysia between 1997-2008
title_sort comparative genetic analysis of vp4, vp1 and 3d gene regions of enterovirus 71 and coxsackievirus a16 circulating in malaysia between 1997-2008
publishDate 2012
url http://eprints.um.edu.my/7325/1/Comparative_genetic_analysis_of_VP4%2C_VP1_and_3D_gene_regions_of_Enterovirus_71_and_coxsackievirus_A16_circulating_in_Malaysia_between_1997-2008.pdf
http://eprints.um.edu.my/7325/
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